Locus 4772

Sequence ID 3L_DroMel_CAF1
Location 13,389,308 – 13,389,468
Length 160
Max. P 0.696463
window7512 window7513

overview

Window 2

Location 13,389,308 – 13,389,428
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.67
Mean single sequence MFE -37.10
Consensus MFE -27.43
Energy contribution -27.77
Covariance contribution 0.34
Combinations/Pair 1.43
Mean z-score -1.16
Structure conservation index 0.74
SVM decision value 0.04
SVM RNA-class probability 0.555144
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13389308 120 + 23771897
AUGUGGUGAAGCUUAACUGCCAGCCACGUGGCUUGGCCAUUUUGCGCAACGAGAACAUCAUUGCACUUGCUUGCAUCAAAGAGUUGACUCUCGUGCAGGACCAGAAGAAGAUCUUUUCGC
...((((...((..((..(((((((....))).))))..))..))((((.((.....)).)))).....(((((((...((((....)))).)))))))))))(((((.....))))).. ( -36.80)
>DroVir_CAF1 2515 120 + 1
ACGUAGUCAAGCUGAAUUGCCAGCCACGCGGCUUGGCCAUCUUACGGAGUGAGAAUAUCAUUGCCUUGGCUUGCAUUAAGGAGCUUACUUUGGUGCAGGGUCAAAAGAAGAUAUUCUCGC
.(((((((((((((....(....)....))))))))).....))))..(((((((((((.((...((((((((((((((((......)))))))))).))))))..)).))))))))))) ( -45.90)
>DroGri_CAF1 2370 120 + 1
ACGUGGUCAAGCUCAACUGUCAGCCACGCGGCUUGGCCAUCUUGCGCAACGAGAACAUCAUUGCAUUGGCCUGCAUUAAGGAGCUAACAUUGGUGCAGGAUCAGAAGAAGAUAUUCUCGC
..(((((((((((....(((.....))).))))))))))).........((((((.(((.((...(((((((((((((((.......).)))))))))).))))..)).))).)))))). ( -39.70)
>DroWil_CAF1 3274 120 + 1
AUGUGGUUAAAUUGAAUUGCCAGCCACGCGGUUUGGCCAUCUUGCGCAAUGAGAAUAUAAUUGCAUUGGCAUGCAUUAAGGAGUUGACUUUGGUUCAAGAUCAAAAGAAAAUCUUCUCAU
..((((((((((((....(....)....))))))))))))........((((((.......(((((....)))))....(((......(((((((...)))))))......))))))))) ( -23.90)
>DroMoj_CAF1 2365 120 + 1
ACGUGGUCAAGUUGAACUGCCAGCCUCGCGGCUUGGCCAUCUUGCGUAGUGAAAACAUAAUCGCUGUGGCGUGCAUUAAGGACAUCACCCUGGUGCAGGGCCAGAAGAAGAUCUUCUCGC
..((((((((((((....(....)....))))))))))))...(((((((((........))))))((((.(((((((.((......)).))))))).).)))((((.....)))).))) ( -39.90)
>DroAna_CAF1 10350 120 + 1
ACGUGGUCAAGCUUAACUGUCAGCCGCGCGGUCUGGCCAUCUUGCGCAGCGAAAACAUAAUCGCCCUAGCCUGUAUCAAGGAGGUGACCCUUGUGCAGGAUCAGAAAAAGAUAUUCUCGC
.((((((...((......))..)))))).((.....))(((((...(.((((........)))).....((((((.(((((.(....))))))))))))....)...)))))........ ( -36.40)
>consensus
ACGUGGUCAAGCUGAACUGCCAGCCACGCGGCUUGGCCAUCUUGCGCAACGAGAACAUAAUUGCAUUGGCCUGCAUUAAGGAGCUGACUCUGGUGCAGGAUCAGAAGAAGAUAUUCUCGC
..(((((((((((................)))))))))))........(((((((.((..((...(((((((((((((.((......)).))))))))).))))..))..)).))))))) (-27.43 = -27.77 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 13,389,348 – 13,389,468
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.17
Mean single sequence MFE -34.37
Consensus MFE -22.44
Energy contribution -23.08
Covariance contribution 0.64
Combinations/Pair 1.45
Mean z-score -1.49
Structure conservation index 0.65
SVM decision value 0.34
SVM RNA-class probability 0.696463
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13389348 120 + 23771897
UUUGCGCAACGAGAACAUCAUUGCACUUGCUUGCAUCAAAGAGUUGACUCUCGUGCAGGACCAGAAGAAGAUCUUUUCGCUGCCCAUUAAGUACGAGGCUAGCUCGAUUGCCGUUAAUGC
.....(((.((((((.(((.((...((.((((((((...((((....)))).))))))).).))..)).))).)))))).))).(((((((((((((.....))))..)))..)))))). ( -30.90)
>DroVir_CAF1 2555 120 + 1
CUUACGGAGUGAGAAUAUCAUUGCCUUGGCUUGCAUUAAGGAGCUUACUUUGGUGCAGGGUCAAAAGAAGAUAUUCUCGCUGCCCAUCAAAUACGAAGCCAGCUCUAUUGCAGCCAAUGC
.....((((((((((((((.((...((((((((((((((((......)))))))))).))))))..)).)))))))))))).)).............((..((......)).))...... ( -38.30)
>DroGri_CAF1 2410 120 + 1
CUUGCGCAACGAGAACAUCAUUGCAUUGGCCUGCAUUAAGGAGCUAACAUUGGUGCAGGAUCAGAAGAAGAUAUUCUCGCUGCCCAUCAAAUACGAGGCCAGCUCCAUAGCGGCCAAUGC
..((.(((.((((((.(((.((...(((((((((((((((.......).)))))))))).))))..)).))).)))))).))).))..........((((.(((....)))))))..... ( -40.80)
>DroWil_CAF1 3314 120 + 1
CUUGCGCAAUGAGAAUAUAAUUGCAUUGGCAUGCAUUAAGGAGUUGACUUUGGUUCAAGAUCAAAAGAAAAUCUUCUCAUUGCCCAUUAAAUACGAGGCCAGUUCGAUAGCCACCAAUGC
..((.(((((((((.......(((((....)))))....(((......(((((((...)))))))......)))))))))))).))..........(((.(......).)))........ ( -24.30)
>DroMoj_CAF1 2405 120 + 1
CUUGCGUAGUGAAAACAUAAUCGCUGUGGCGUGCAUUAAGGACAUCACCCUGGUGCAGGGCCAGAAGAAGAUCUUCUCGCUGCCCAUCAAAUACGAGGCCAGCUCCAUAGCCACAAACUC
...(((..(((....)))...)))((((((.(((((((.((......)).)))))))(((..(((((.....))))).((((.((.((......)))).)))))))...))))))..... ( -38.30)
>DroAna_CAF1 10390 120 + 1
CUUGCGCAGCGAAAACAUAAUCGCCCUAGCCUGUAUCAAGGAGGUGACCCUUGUGCAGGAUCAGAAAAAGAUAUUCUCGCUUCCAAUCAAGUACGAAGCCAGCUCAAUUGCUGUCAACGC
...(((..((((........)))).((..((((((.(((((.(....))))))))))))...)).....((.......(((((...........)))))((((......))))))..))) ( -33.60)
>consensus
CUUGCGCAACGAGAACAUAAUUGCAUUGGCCUGCAUUAAGGAGCUGACUCUGGUGCAGGAUCAGAAGAAGAUAUUCUCGCUGCCCAUCAAAUACGAGGCCAGCUCCAUAGCCGCCAAUGC
.....((((((((((.((..((...(((((((((((((.((......)).))))))))).))))..))..)).))))))))))..................((......))......... (-22.44 = -23.08 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:50 2006